SMTL ID : 2ps1.1

S. cerevisiae orotate phosphoribosyltransferase complexed with orotic acid and PRPP

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.75 Å

Oligo State

homo-dimer

Ligands

2 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 2 residues within 4Å: Chain A: A.75 Ligands: PRP.3 No protein-ligand interaction detected (PLIP) MG.4: 3 residues within 4Å: Chain B: A.75, D.132 Ligands: PRP.6 No protein-ligand interaction detected (PLIP)

2 x ORO: OROTIC ACID(Non-covalent)

ORO.2: 9 residues within 4Å: Chain A: L.29, K.30, F.38, F.39, D.133, V.134, T.136, R.164 Ligands: PRP.3 13 PLIP interactions: 10 interactions with chain A, 3 interactions with chain B Hydrophobic interactions: A:L.29 Hydrogen bonds: A:K.30, A:F.39, A:F.39, A:T.136, A:R.164 Water bridges: A:S.31, A:D.133, A:D.133, B:K.110, B:K.110, B:H.112 pi-Stacking: A:F.38 ORO.5: 9 residues within 4Å: Chain B: L.29, K.30, F.38, F.39, D.133, V.134, T.136, R.164 Ligands: PRP.6 13 PLIP interactions: 9 interactions with chain B, 4 interactions with chain A Hydrophobic interactions: B:L.29 Hydrogen bonds: B:K.30, B:F.39, B:F.39, B:K.77, B:T.136, B:R.164 Water bridges: B:S.31, A:K.110, A:K.110, A:K.110, A:H.112 pi-Stacking: B:F.38

2 x PRP: 1-O-pyrophosphono-5-O-phosphono-alpha-D-ribofuranose(Non-covalent)

PRP.3: 18 residues within 4Å: Chain A: K.30, A.75, Y.76, K.77, D.132, D.133, V.134, M.135, T.136, A.137, G.138, T.139, A.140 Chain B: R.106, K.110, H.112 Ligands: MG.1, ORO.2 28 PLIP interactions: 20 interactions with chain A, 8 interactions with chain B Hydrogen bonds: A:A.75, A:Y.76, A:K.77, A:D.132, A:T.136, A:A.137, A:G.138, A:T.139, A:A.140 Water bridges: A:K.30, A:G.78, A:K.107, A:D.133, A:T.136, A:G.138, A:T.139, A:I.141, B:K.110, B:K.110, B:K.110 Salt bridges: A:K.30, A:K.30, A:K.77, B:R.106, B:K.110, B:K.110, B:K.110, B:H.112 PRP.6: 18 residues within 4Å: Chain A: R.106, K.110, H.112 Chain B: K.30, A.75, Y.76, K.77, D.132, D.133, V.134, M.135, T.136, A.137, G.138, T.139, A.140 Ligands: MG.4, ORO.5 26 PLIP interactions: 17 interactions with chain B, 9 interactions with chain A Hydrogen bonds: B:Y.76, B:K.77, B:D.132, B:T.136, B:A.137, B:G.138, B:T.139, B:A.140 Water bridges: B:K.30, B:G.78, B:D.132, B:T.136, B:G.138, B:I.141, A:K.110, A:K.110, A:H.112, A:H.112 Salt bridges: B:K.30, B:K.30, B:K.77, A:R.106, A:K.110, A:K.110, A:K.110, A:H.112

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Gonzalez-Segura, L. et al., Ternary complex formation and induced asymmetry in orotate phosphoribosyltransferase. Biochemistry (2007)

Release Date

2008-01-15

Peptides

Orotate phosphoribosyltransferase 1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Orotate phosphoribosyltransferase 1

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